Almost any of the brands out there make "low profile" tool boxes. I prefer the cross bed type where the edges rest on top of the truck bed rails. My current box is a little over 2 1/2" from the top of the bed rail to the top of the lid.......certainly no clearance issues there. You can find them all the way from say $200 up to over $1000 dollars and it just depends on the material used to make it, the quality of the construction, and the features/locks that they use. Do a google search for low profile crossbed tool box and you'll be amazed at how many pop up. Then of course you can find the kind that just mount to the bed of the truck and don't sit on the bed rails....it all about personal preference.